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[177352_at]

Description CD4.9 /REP_DB=WormBase Gene ID /WP=CE16957 /TR=O44163 /GB=AAB88347.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 0      4grp_total > 50      6grp_total_sub > Hat      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 377
1 2 3 4 range
A 19
(-2.9)
A 		333.2
(2.3)
P 		375.6
(3)
A 		16
(-3)
A 		360
B 42.4
(-2.7)
A 		389.3
(3)
P 		301.2
(1.6)
P 		22.7
(-3)
A 		367
C 12.4
(-3)
A 		322.6
(3)
P 		262.9
(1.8)
P 		121.7
(-0.9)
A 		310
avr 24.6
(-3) 		348.4
(3) 		313.2
(2.3) 		53.5
(-2.5) 		324

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 255
1 2 3 4 5 6 range
A 94.1
(-2.8)
A 		328.1
(3)
P 		84.8
(-3)
A 		130.4
(-1.9)
P 		180.9
(-0.6)
P 		176.4
(-0.7)
P 		243
B 73
(-3)
A 		209.9
(3)
A 		90.5
(-2.2)
A 		111.8
(-1.3)
A 		119.9
(-0.9)
P 		103.7
(-1.7)
P 		137
C 131.3
(-3)
A 		245.5
(3)
P 		156
(-1.7)
A 		143.8
(-2.3)
P 		155.5
(-1.7)
P 		181.1
(-0.4)
P 		114
avr 99.5
(-3) 		261.2
(3) 		110.4
(-2.6) 		128.7
(-1.9) 		152.1
(-1) 		153.7
(-1) 		162
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 96
1 2 3 4 range
A 6.9
(-2.7)
A 		72.3
(1.4)
P 		98.2
(3)
A 		2.3
(-3)
A 		96
B 13.5
(-2.4)
A 		96.1
(3)
P 		69.8
(1.3)
P 		4.8
(-3)
A 		91
C 4.1
(-3)
A 		92.7
(3)
P 		91.6
(2.9)
P 		20.5
(-1.9)
A 		89
avr 8.2
(-3) 		87
(3) 		86.5
(3) 		9.2
(-2.9) 		79

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 99
1 2 3 4 5 6 range
A 17.4
(-3)
A 		116.7
(3)
P 		18.5
(-2.9)
A 		33.1
(-2.1)
P 		54.6
(-0.8)
P 		42.9
(-1.5)
P 		99
B 25.4
(-2.6)
A 		69.9
(3)
A 		22
(-3)
A 		29.6
(-2)
A 		48.7
(0.3)
P 		38.7
(-0.9)
P 		48
C 48.6
(-0.4)
A 		74.9
(3)
P 		39.7
(-1.6)
A 		28.9
(-3)
P 		50.3
(-0.2)
P 		60.6
(1.1)
P 		46
avr 30.5
(-2.6) 		87.2
(3) 		26.7
(-3) 		30.5
(-2.6) 		51.2
(-0.6) 		47.4
(-0.9) 		61
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 177352_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11968
Sequence Type Exemplar sequence
Representative Public ID CD4.9 NCBI
Target Description CD4.9 /REP_DB=WormBase Gene ID /WP=CE16957 /TR=O44163 /GB=AAB88347.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Annotation Method Description
Annotation Description This probe set was annotated using the Matching Probes based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_072079(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072079 NCBI Caenorhabditis elegans CD4.9 (CD4.9) mRNA, complete cds. 11/11 None
SNAP00000006238 ENSEMBL cdna:SNAP chromosome:CEL140:V:5612459:5613700:-1 9/11 None
GENEFINDER00000006245 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:5612009:5613700:-1 9/11 None
CD4.9 ENSEMBL cdna:known chromosome:CEL140:V:5611504:5613700:-1 gene:CD4.9 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:5611503-5613700(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl CD4.9
Entrez Gene 183879 Entrez gene
SwissProt O44163 EMBL-EBI
WormBase CE16957 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_504480 CD4.9 [Caenorhabditis elegans] gb|AAB88347.1| Hypothetical protein CD4.9 [Caenorhabditis elegans] 1.0E-169
blast NP_504480 CD4.9 [Caenorhabditis elegans] gb|AAB88347.1| Hypothetical protein CD4.9 [Caenorhabditis elegans] 1.0E-112
Protein Domains
Database ID Description E-Value
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 8.8E-7
Sequence
Target Sequence 
>C. ELEGANS:177352_AT
cagagtaacaagaccacccaagaccctcgaaacaagccgaaccagcctacgaaccacctc
tcaaacactacccccagcacgacaaactacatcgaatttcgaaaagaaaatgccacaagc
cattgtgcaaccacctagatctcctccagccctacctcaaccaaaaggagaaaaagtatt
cataatgcaagtaacagcttctccttccattcgaccatctcttcaagagctcccaagagc
ttcatctggttcacgaccagcttcaaaatcattgcctgttaaagtaccaagtatgagcag
tgacaacattcttgcacaaatcaccagtcaaatgaatggtggtatgagtccatctacatg
taatgaaggtcatcgaatgacagtggtcccagtaaattatgtcgaatcattgctgaattt
tcttgtgatactgatgtcgaacatcttctcgagtgatcaaatgacgcttgtctgctcaca
gtcaaact

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAGAGTAACAAGACCACCCAAGACC 468 201 618 Antisense
TCGAAACAAGCCGAACCAGCCTACG 579 601 644 Antisense
CCCCCAGCACGACAAACTACATCGA 66 261 688 Antisense
AAGCCATTGTGCAACCACCTAGATC 431 149 734 Antisense
AATGCAAGTAACAGCTTCTCCTTCC 503 165 801 Antisense
TCGACCATCTCTTCAAGAGCTCCCA 624 601 828 Antisense
CTCCCAAGAGCTTCATCTGGTTCAC 11 235 847 Antisense
GGTTCACGACCAGCTTCAAAATCAT 101 507 865 Antisense
AACATTCTTGCACAAATCACCAGTC 158 139 922 Antisense
GGTGGTATGAGTCCATCTACATGTA 649 499 955 Antisense
ACGCTTGTCTGCTCACAGTCAAACT 517 89 1081 Antisense
Sequence Source Affymetrix Proprietary Database